3rd Annual CQB Symposium 2024: “AI in Biodesign” hosted by the Center for Quantitative Biodesign
October 14-15th, 2024
Duke University, West Campus | Fitzpatrick Center: Schiano Auditorium A&B
Upcoming Events & Seminars
The Center for Quantitative BioDesign (held on Fridays) consists of series of seminars on topics in synthetic biology presented by invited speakers from various instuititions all over and corporate sectors.
Launching this Spring 2024 semester, The Duke Center for Quantitative BioDesign is pleased to announce a student/postdoc-focused series on AI/automation for biodesign. These meetings serve as an opportunity for current trainees in our center to present on their research/works-in-progress and receive feedback from the community.
Student- & Postdoc-Focused Works-In-Progress Meetings on AI/Automation in Biodesign Sign-Up Sheet
Note: Welcome! We would love to hear about your work (in progress). Please plan on giving a ~20-minute talk + 10 minutes for Q&A. We’ll provide pizza and drinks, and feel free to join us for happy hour afterwards (4-5pm)!
| Date | Presenters |
| Jan 26 2024 | Presenter 1: Adim Moreb, PhD (Lynch Lab)
Topic: Architect-directed DNA Synthesis Presenter 2: Lin Zhao (Chatterjee Lab) Topic: PAM flexible genome editing with an engineered chimeric Cas9 |
| Feb 9, 2024 | Presenter 1: Lauren Hong (Chatterjee Lab)
Topic: Programmable Protein Stabilization with Language Model-Derived Peptide Guides Presenter 2: Jia Lu (You Lab) Topic: Programming synthetic pattern formation |
| Feb 23, 2024 | Presenter 1: Sophie Vincoff (Chatterjee Lab)
Topic: CDR3-RWKV: Autoregressive CDR3 Presenter 2: Utsuki Yano (Lynch Lab) Topic: Development of Novel Small Molecules through |
| Mar 1, 2024 | Presenter 1: Zachary Fralish (Reker Lab)
Topic: Machine Learning for Prodrug Design Presenter 2: Stefan Golas (Chory Lab) Topic: Automation for High-Throughput Cell Culture |
| Mar 29, 2024 | Presenter 1: Zhengqing Zhou (You Lab)
Topic: ML-Aided Construction of Effective Model Describing Focal Microbial Population Dynamics Presenter 2: Chloe Markey (Reker Lab) Topic: Predicting and Perturbing Drug Metabolism with ML |
| April 12, 2024 | Presenter 1: Qianni Ma (Chory Lab)
Topic: TBD Presenter 2: Zhangzhi Peng (Chatterjee Lab) Topic: PTM-Mamba: A PTM-Aware Protein Language Model with Bidirectional Gated Mamba Blocks |
Additional Speakers
We’re so excited to see a tremendous level of interest in participating in this speaking series! If you’d like to participate but no slots are available for dates where you’d be able to present contact us. Please include your name, lab, and available date(s). We will do our best to coordinate availability to include speakers from each of our participating labs.
Stay up-to-date! LinkedIn and X(formerly Twitter)
Spring 2024 Schedule
Time: 3:00 – 4:00 pm
Place: Wilkinson Auditorium 021
| Date | Course | Speaker | Institution | Faculty Host | Presentation Title |
| Jan 19, 2024 | Seminar Series | Sujit Datta, Ph.D | Princeton University | Lingchong You, Ph.D. | Sticking together: How bacterial collectives (re)shape themselves |
| Feb 2, 2024 | Seminar Series | Nathan Crook, Ph.D. | North Carolina State University | Daniel Reker, Ph.D. | Combinatorial and evolutionary engineering of probiotic yeast for in situ biomanufacturing |
| Feb 16, 2024 | Seminar Series | Alex Holehouse, Ph.D. | Washington University in St. Louis | Lucia Strader, Ph.D. | Mapping from sequence to function in intrinsically disordered regions |
| Mar 8, 2024 | Seminar Series | James Jim Collins, Ph.D. | Massachusetts Institute of Technology | Daniel Reker, Ph.D. and Tatiana Segura, Ph.D. | Synthetic biology: biology by design |
| Mar 22, 2024 | Seminar Series | Samira Musah, Ph.D | Duke University | Duke Center for Quantitative BioDesign | Engineering Organ-Level Structures and Functions: Harnessing Human Induced Pluripotent Stem Cells for Advanced Biomedical Applications |
| April 5, 2024 | Seminar Series | TBD | TBD | TBD | TBD |
January 11-12, 2024: Mid-Atlantic Synthetic Biology Symposium (Registration is now closed) https://www.midatlanticsynbionetwork.org/
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December 1,2023
Richard Allen, Ph.D. | Pfizer| Facilitating Nirmatrelvir Clinical Development with Quantitative Systems Pharmacology
November 17,2023
Hyun Youk,Ph.D. | University of Massachusetts Chan Medical School | How cells stay out of thermal equilibrium by proliferating at high and frigid temperatures
November 3, 2023
Adam Gormley, Ph.D. – Rutgers University | Automation and Active Learning for the Autonomous Design of Polymer Biomaterials
October 20th, 2023
Sarah Shelton, Ph.D. – UNC-NCSU | Vascular Microphysiological Systems for Modeling the Tumor Microenvironment
October 16th-17th,2023
Join us for the 2nd Annual Biomolecular Condensates Symposium here at Duke University on October 16-17, 2023. Explore cutting-edge research, engage with experts, and network with peers. Registration is free! Please see the flyer for more details.
October 6, 2023
Clay Wright, Ph.D.- Virginia Tech | Plant Hormone Synthetic Biology: Reprogramming Agriculture|
September 15, 2023
Will Cao, Ph.D. |From a Ph.D. to a Startup Founder|
CQBD Seminars
The Center for Quantitative BioDesign (held on Fridays) is a weekly series of seminars on topics in synthetic biology presented by invited speakers, Duke faculty, and CQBD doctoral and graduate students.
Stay up-to-date! LinkedIn and X(formerly Twitter)
Fall 2023 Schedule
Time: 3:00 – 4:00 pm
Place: Wilkinson Building 132
| Date | Course | Speaker | Institution | Faculty Host | Presentation Title |
| Sept
15 |
seminar | Will Cao, Ph.D | Pando Bioscience | Lingchong You, Ph.D. | From Ph.D. to Founder |
| Oct
6 |
seminar | Clay Wright, Ph.D. | Virginia Tech | Lucia Strader, Ph.D. | Plant Hormone Synthetic Biology: Reprogramming Agriculture |
| Oct
20 |
seminar | Sarah Shelton, Ph.D. | UNC-NCSU | Xavier Larkin, M.A.; Lingchong You, Ph.D. & Daniel Reker, Ph.D. | Vascular Microphysiological Systems for Modeling the Tumor Microenvironment |
| Nov
3 |
seminar | Adam Gormley, Ph.D. | Rutgers University | Daniel Reker, Ph.D. | Automation and Active Learning for the Autonomous Design of Polymer Biomaterials |
| Nov
17 |
seminar | Hyun Youk, Ph.D | University of Massachusetts Chan Medical School | Lingchong You, Ph.D. | How cells stay out of thermal equilibrium by proliferating at high and frigid temperatures |
| Dec
1 |
seminar | Richard Allen, Ph.D. | Pfizer | Lingchong You, Ph.D. | Facilitating Nirmatrelvir Clinical Development with Quantitative Systems Pharmacology |
Fall 2023 Center’s Latest News
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April 1,2023
March 31, 2023
Benfey and Nolan’s research article published in the Science Journal
March 27, 2023
Hoffman’s research article “Developmental Cell” published in the National Library of Medicine
March 8, 2023
February 28, 2023
David wins $404,236 grant from the National Institutes of Health (NIH)
February 21, 2023
February 13, 2023
January 5, 2023
Spring 2023: Center’s Latest News
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Symposium 2022: The Quantitative Biology of the Microbiome
Co-sponsored by the Center for Quantitative Biodesign and the Duke Microbiome Center.
Research-in-Progress Talks
Unless otherwise noted, all RiP Talks will take place on Fridays at 2 pm in Wilkinson 132. If you are a PI or trainee interested in filling an open spot in the RiP Talk schedule, email Grayson Hamrick (Grayson.hamrick@duke.edu) to be included!
| Date | Presenter 1 | Presenter 2 |
|---|---|---|
| Oct 7, 2022 | Lingchong You | Stefano Di Talia |
| Oct 14, 2022 | No RiP Talk - BMES Meeting | |
| Oct 21, 2022 | David Carlson | Daniel Reker |
| Oct 28, 2022 | Pranam Chatterjee | Jeovanna Rios |
| Nov 4, 2022 | Amy Schmid | Shuo Han |
| Nov 11, 2022 | Bruce Donald | Yi Yao |
| Nov 18, 2022 | Jing Yan (visiting from Yale) | |
| Nov 25, 2022 | No RiP Talk - Thanksgiving Break | |
| Dec 2, 2022 | Philip Benfey | Raluca Gordan |
| Dec 9, 2022 | Lucia Strader | Emma Chory |
To subscribe to the Center email list (biodesign@duke.edu), email sympa@duke.edu with the subject line: “subscribe biodesign”.
Fall 2022
Friday, October 21, 2022
Research in Progress talks continued with presentations by Dr. Daniel Reker and Dr. David Carlson:
Friday, October 7, 2022
Research in Progress talks kicked off with presentations by Dr. Lingchong You and Dr. Stefano Di Talia:
Friday, September 23, 2022
The Duke Center for Quantitative BioDesign was proud to host:
Dr. Gregor Fuhrman, Professor and Chair for Pharmaceutical Biology
Friedrich-Alexander-University, Erlangen, Germany
For his talk: “The challenges of extracellular vesicles for antibiotic therapy and vaccine development”
